
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   91 (   91),  selected   91 , name T0350TS599_2-D1
# Molecule2: number of CA atoms   91 ( 1511),  selected   91 , name T0350_D1.pdb
# PARAMETERS: T0350TS599_2-D1.T0350_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    N       2      N       2           -
LGA    I       3      I       3           -
LGA    -       -      E       4           -
LGA    -       -      R       5           -
LGA    -       -      L       6           -
LGA    -       -      T       7           -
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      Q      10           -
LGA    -       -      P      11           -
LGA    -       -      V      12           -
LGA    -       -      W      13           -
LGA    -       -      D      14           -
LGA    -       -      R      15           -
LGA    -       -      Y      16           -
LGA    -       -      D      17           -
LGA    -       -      T      18           -
LGA    -       -      Q      19           -
LGA    -       -      I      20           -
LGA    -       -      H      21           -
LGA    E       4      S      36          3.534
LGA    R       5      Y      37          3.739
LGA    L       6      T      38          3.017
LGA    T       7      -       -           -
LGA    T       8      N      39           #
LGA    L       9      L      40           -
LGA    Q      10      A      41           -
LGA    P      11      E      42           -
LGA    V      12      -       -           -
LGA    W      13      -       -           -
LGA    D      14      -       -           -
LGA    R      15      -       -           -
LGA    Y      16      -       -           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      -       -           -
LGA    H      21      -       -           -
LGA    S      36      -       -           -
LGA    Y      37      -       -           -
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      -       -           -
LGA    A      41      -       -           -
LGA    E      42      -       -           -
LGA    M      43      -       -           -
LGA    V      44      -       -           -
LGA    G      45      -       -           -
LGA    E      46      -       -           -
LGA    M      47      -       -           -
LGA    N      48      M      43           #
LGA    K      49      V      44           -
LGA    L      50      G      45           -
LGA    -       -      E      46           -
LGA    L      51      M      47          1.600
LGA    E      52      N      48          3.074
LGA    -       -      K      49           -
LGA    -       -      L      50           -
LGA    -       -      L      51           -
LGA    -       -      E      52           -
LGA    -       -      P      53           -
LGA    -       -      S      54           -
LGA    -       -      Q      55           -
LGA    P      53      V      56          5.553
LGA    S      54      -       -           -
LGA    Q      55      H      57           #
LGA    V      56      L      58          3.434
LGA    H      57      K      59          0.738
LGA    L      58      F      60          0.903
LGA    K      59      E      61          0.894
LGA    F      60      L      62          0.649
LGA    E      61      H      63          0.931
LGA    L      62      D      64          2.255
LGA    H      63      K      65          3.290
LGA    D      64      -       -           -
LGA    K      65      L      66          4.234
LGA    L      66      N      67          1.434
LGA    N      67      -       -           -
LGA    E      68      E      68          1.990
LGA    Y      69      Y      69          2.204
LGA    Y      70      Y      70          1.164
LGA    V      71      V      71          1.120
LGA    K      72      K      72          0.765
LGA    V      73      V      73          0.647
LGA    I      74      I      74          0.656
LGA    E      75      E      75          1.444
LGA    D      76      D      76          1.858
LGA    S      77      S      77          2.202
LGA    T      78      T      78          2.523
LGA    N      79      N      79          3.760
LGA    E      80      E      80           #
LGA    V      81      -       -           -
LGA    I      82      V      81          2.254
LGA    R      83      I      82          3.704
LGA    E      84      -       -           -
LGA    I      85      R      83          3.673
LGA    P      86      -       -           -
LGA    P      87      -       -           -
LGA    K      88      -       -           -
LGA    R      89      E      84           #
LGA    W      90      I      85          3.150
LGA    L      91      P      86          3.151
LGA    -       -      P      87           -
LGA    D      92      K      88           #
LGA    F      93      R      89           #
LGA    Y      94      W      90          2.490
LGA    A      95      L      91          4.279
LGA    A      96      D      92          1.809
LGA    M      97      F      93          4.113
LGA    T      98      Y      94           #
LGA    E      99      -       -           -
LGA    F     100      A      95          4.869
LGA    L     101      A      96           -
LGA    G     102      M      97           -
LGA    L     103      T      98           -
LGA    F     104      E      99           -
LGA    V     105      F     100           -
LGA    -       -      L     101           -
LGA    -       -      G     102           -
LGA    -       -      L     103           -
LGA    -       -      F     104           -
LGA    -       -      V     105           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     38    2.78    31.58     28.907     1.319

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.363760 * X  +  -0.927419 * Y  +   0.087023 * Z  +   0.470130
  Y_new =   0.658691 * X  +  -0.322160 * Y  +  -0.679955 * Z  +   5.029923
  Z_new =   0.658639 * X  +  -0.190019 * Y  +   0.728071 * Z  + -24.663231 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.255295    2.886298  [ DEG:   -14.6273    165.3727 ]
  Theta =  -0.719008   -2.422585  [ DEG:   -41.1961   -138.8039 ]
  Phi   =   2.075362   -1.066230  [ DEG:   118.9095    -61.0905 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0350TS599_2-D1                               
REMARK     2: T0350_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_2-D1.T0350_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   38   2.78   31.58  28.907
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_2-D1
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       7.494   6.790 -28.420  1.00  0.00              
ATOM      2  CA  ASN     2       4.297   6.507 -30.011  1.00  0.00              
ATOM      3  CA  ILE     3       5.861   9.677 -32.278  1.00  0.00              
ATOM      4  CA  GLU     4       2.792   7.599 -31.249  1.00  0.00              
ATOM      5  CA  ARG     5       0.697  10.760 -30.529  1.00  0.00              
ATOM      6  CA  LEU     6       1.367  12.591 -33.747  1.00  0.00              
ATOM      7  CA  THR     7       0.544   9.855 -36.310  1.00  0.00              
ATOM      8  CA  THR     8      -2.738   9.199 -34.467  1.00  0.00              
ATOM      9  CA  LEU     9      -3.870  12.848 -34.303  1.00  0.00              
ATOM     10  CA  GLN    10      -3.305  13.459 -38.017  1.00  0.00              
ATOM     11  CA  PRO    11      -5.596  10.495 -38.805  1.00  0.00              
ATOM     12  CA  VAL    12      -8.172  11.949 -36.411  1.00  0.00              
ATOM     13  CA  TRP    13      -8.025  15.415 -37.971  1.00  0.00              
ATOM     14  CA  ASP    14      -8.905  13.811 -41.251  1.00  0.00              
ATOM     15  CA  ARG    15     -11.887  11.834 -39.802  1.00  0.00              
ATOM     16  CA  TYR    16     -13.978  14.658 -38.502  1.00  0.00              
ATOM     17  CA  ASP    17     -13.270  15.691 -34.965  1.00  0.00              
ATOM     18  CA  THR    18     -16.878  14.943 -33.879  1.00  0.00              
ATOM     19  CA  GLN    19     -16.716  11.502 -35.503  1.00  0.00              
ATOM     20  CA  ILE    20     -13.408  10.736 -33.750  1.00  0.00              
ATOM     21  CA  HIS    21     -14.639  11.783 -30.300  1.00  0.00              
ATOM     36  CA  SER    36     -14.910  -4.230 -15.733  1.00  0.00              
ATOM     37  CA  TYR    37     -14.725  -0.654 -14.578  1.00  0.00              
ATOM     38  CA  THR    38     -12.724  -1.446 -11.413  1.00  0.00              
ATOM     39  CA  ASN    39     -10.229  -3.549 -13.396  1.00  0.00              
ATOM     40  CA  LEU    40      -9.825  -0.790 -16.061  1.00  0.00              
ATOM     41  CA  ALA    41      -9.120   1.809 -13.394  1.00  0.00              
ATOM     42  CA  GLU    42      -6.500  -0.524 -11.878  1.00  0.00              
ATOM     43  CA  MET    43      -4.852  -0.939 -15.317  1.00  0.00              
ATOM     44  CA  VAL    44      -4.742   2.883 -15.615  1.00  0.00              
ATOM     45  CA  GLY    45      -3.073   3.285 -12.210  1.00  0.00              
ATOM     46  CA  GLU    46      -0.439   0.661 -13.102  1.00  0.00              
ATOM     47  CA  MET    47       0.167   2.391 -16.446  1.00  0.00              
ATOM     48  CA  ASN    48       0.569   5.757 -14.725  1.00  0.00              
ATOM     49  CA  LYS    49       3.266   4.160 -12.573  1.00  0.00              
ATOM     50  CA  LEU    50       4.947   2.766 -15.686  1.00  0.00              
ATOM     51  CA  LEU    51       4.898   6.214 -17.304  1.00  0.00              
ATOM     52  CA  GLU    52       6.463   7.848 -14.233  1.00  0.00              
ATOM     53  CA  PRO    53       9.210   5.205 -14.273  1.00  0.00              
ATOM     54  CA  SER    54       9.825   5.842 -18.037  1.00  0.00              
ATOM     55  CA  GLN    55       9.972   9.570 -17.342  1.00  0.00              
ATOM     56  CA  VAL    56      13.067   8.827 -15.198  1.00  0.00              
ATOM     57  CA  HIS    57      14.947   7.906 -18.388  1.00  0.00              
ATOM     58  CA  LEU    58      12.798   7.174 -21.349  1.00  0.00              
ATOM     59  CA  LYS    59      14.121   7.049 -24.829  1.00  0.00              
ATOM     60  CA  PHE    60      11.578   7.100 -27.683  1.00  0.00              
ATOM     61  CA  GLU    61      12.465   5.957 -31.159  1.00  0.00              
ATOM     62  CA  LEU    62      10.013   6.424 -33.970  1.00  0.00              
ATOM     63  CA  HIS    63      10.467   4.583 -37.138  1.00  0.00              
ATOM     64  CA  ASP    64       9.002   6.481 -40.029  1.00  0.00              
ATOM     65  CA  LYS    65       9.039   3.680 -42.514  1.00  0.00              
ATOM     66  CA  LEU    66       7.388   1.052 -40.404  1.00  0.00              
ATOM     67  CA  ASN    67       5.202   3.507 -38.509  1.00  0.00              
ATOM     68  CA  GLU    68       6.392   1.887 -35.348  1.00  0.00              
ATOM     69  CA  TYR    69       7.223   3.278 -32.072  1.00  0.00              
ATOM     70  CA  TYR    70      10.245   1.949 -30.185  1.00  0.00              
ATOM     71  CA  VAL    71      10.665   2.669 -26.530  1.00  0.00              
ATOM     72  CA  LYS    72      14.012   2.301 -24.876  1.00  0.00              
ATOM     73  CA  VAL    73      14.246   2.520 -21.124  1.00  0.00              
ATOM     74  CA  ILE    74      17.526   3.675 -19.667  1.00  0.00              
ATOM     75  CA  GLU    75      18.044   4.486 -15.953  1.00  0.00              
ATOM     76  CA  ASP    76      20.628   7.220 -16.059  1.00  0.00              
ATOM     77  CA  SER    77      22.398   6.490 -12.938  1.00  0.00              
ATOM     78  CA  THR    78      22.805   2.753 -12.981  1.00  0.00              
ATOM     79  CA  ASN    79      21.986   1.695 -16.565  1.00  0.00              
ATOM     80  CA  GLU    80      19.778  -1.066 -15.313  1.00  0.00              
ATOM     81  CA  VAL    81      16.517  -1.233 -17.206  1.00  0.00              
ATOM     82  CA  ILE    82      18.074  -0.988 -20.613  1.00  0.00              
ATOM     83  CA  ARG    83      20.609  -3.681 -19.903  1.00  0.00              
ATOM     84  CA  GLU    84      18.101  -6.145 -18.576  1.00  0.00              
ATOM     85  CA  ILE    85      15.582  -5.913 -21.235  1.00  0.00              
ATOM     86  CA  PRO    86      15.424  -8.255 -24.135  1.00  0.00              
ATOM     87  CA  PRO    87      14.168  -6.333 -27.127  1.00  0.00              
ATOM     88  CA  LYS    88      10.885  -8.280 -27.330  1.00  0.00              
ATOM     89  CA  ARG    89       9.938  -7.523 -23.759  1.00  0.00              
ATOM     90  CA  TRP    90      10.598  -3.788 -24.127  1.00  0.00              
ATOM     91  CA  LEU    91       8.361  -3.671 -27.244  1.00  0.00              
ATOM     92  CA  ASP    92       5.583  -5.529 -25.362  1.00  0.00              
ATOM     93  CA  PHE    93       5.749  -3.161 -22.398  1.00  0.00              
ATOM     94  CA  TYR    94       5.593  -0.204 -24.830  1.00  0.00              
ATOM     95  CA  ALA    95       2.543  -1.760 -26.597  1.00  0.00              
ATOM     96  CA  ALA    96       0.912  -2.184 -23.182  1.00  0.00              
ATOM     97  CA  MET    97       1.668   1.462 -22.282  1.00  0.00              
ATOM     98  CA  THR    98       0.216   2.791 -25.545  1.00  0.00              
ATOM     99  CA  GLU    99      -3.000   0.939 -25.054  1.00  0.00              
ATOM    100  CA  PHE   100      -3.342   2.225 -21.555  1.00  0.00              
ATOM    101  CA  LEU   101      -2.407   5.962 -21.604  1.00  0.00              
ATOM    102  CA  GLY   102      -4.384   6.489 -24.763  1.00  0.00              
ATOM    103  CA  LEU   103      -7.392   4.606 -23.592  1.00  0.00              
ATOM    104  CA  PHE   104      -7.715   6.142 -20.087  1.00  0.00              
ATOM    105  CA  VAL   105      -6.779   9.714 -20.871  1.00  0.00              
TER                                                                             
END
